Toggle navigation
Peak Browser
Enrichment Analysis
Diff Analysis
Target Genes
Colocalization
Publications
Docs
Search
Go
Find By ID
Visualize
Install and launch IGV before selecting data to visualize
For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
Error connecting to IGV?
Analyze
For hg38
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
For hg19
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
Download
For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
Link Out
Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: RNA polymerase II
wikigenes
PDBj
CellType: ECC-1
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX100581
GSM803536: HudsonAlpha ChipSeq ECC-1 Pol2 DMSO 0.02pct v041610.2
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
RNA polymerase
Antigen
RNA polymerase II
Cell type
Cell type Class
Uterus
Cell type
ECC-1
Primary Tissue
Uterus
Tissue Diagnosis
Adenocarcinoma
Attributes by original data submitter
Sample
source_name
ECC-1
biomaterial_provider
ATCC
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell description
epithelial cell line derived from an endometrium adenocarcinoma, fetal membranes were collected from women who underwent planned cesarean delivery at term, before labor and without rupture of membranes
cell lineage
endoderm
antibody antibodydescription
mouse monoclonal, clone 8WG16. Antibody Target: POL2
antibody targetdescription
RNA Polymerase II
antibody vendorname
Covance
antibody vendorid
MMS-126R
treatment description
1 h with 0.02% Dimethyl sufloxide (DMSO) (Myers)
controlid
SL1882
labexpid
SL1176,SL2085
replicate
1,2
softwareversion
MACS
antibody vendorname
Covance
antibody vendorid
MMS-126R
treatment
DMSO_0.02pct
treatment description
1 h with 0.02% DMSO (Myers)
protocol
v041610.2
protocol description
2x10^7 cells, fragmentation by probe-in sonicator, one 15-cycle round of PCR (Myers)
controlid
SL1882
labexpid
SL1176
replicate
1
replicate description
tier 1
Sequenced DNA Library
library_name
GSM803536: HudsonAlpha_ChipSeq_ECC-1_Pol2_DMSO_0.02pct_v041610.2
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
Sequencing Platform
instrument_model
Illumina Genome Analyzer
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
47501051
Reads aligned (%)
86.3
Duplicates removed (%)
9.3
Number of peaks
27150 (qval < 1E-05)
hg19
Number of total reads
47501051
Reads aligned (%)
85.5
Duplicates removed (%)
9.2
Number of peaks
27250 (qval < 1E-05)
Base call quality data from
DBCLS SRA